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In my discussion with Ben today, we talked a little bit about the different types of files output at different stages of the analysis.
I'm copying my notes here for later reference, and ideally we…
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The ADS team received new data from the Virginia Commonwealth University (VCU) and proceeded to generate masks for this data to upload on data_axondeepseg_bf_training.
Following the instructions on t…
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Hello, is there any code for the paper？
《Automated morphological phenotyping using learned shape descriptors and functional maps: A novel approach to geometric morphometrics》
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To read images, test files use interchangeably `imageio_imread` [(test_compute_morphometrics.py)](https://github.com/neuropoly/axondeepseg/blob/master/test/morphometrics/test_compute_morphometrics.py)…
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@kassthefish, in [line 93 of the materials & methods](https://github.com/habi/EAWAG-manuscript/blame/main/content/03.materials.methods.md#L93), I've copy-pasted your sentence as "This process brings a…
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```
Singularity> md5sum TE1.mrc TF1.mrc
79ce72e3fbee1bd6fe0c155d470ea6bb TE1.mrc
1c74274c633098b9165b9bc7363e225a TF1.mrc
Singularity> mrcfile-validate TE1.mrc
/esmmc/morphometrics/miniconda3/e…
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Can't download either by CRAN or github. When downloading from github, I get the following:
"Select a number or, hit 0 to cancel.
1: CSJCampbell/throwdown a minimalist file format for m…
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e.g.: axon_area[µm2], axon_diam[µm]
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Essentially, this comes from user feedback while working on #645. This flag would trigger a *border-info* mode which would do this:
- add the `border_touching` boolean column in the morph. file imple…
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As discussed in our previous meeting, we need to have consensus what the default axon shape should be for morphometrics computation . In order to determine that, I have tested the feature (#399) on th…